Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 198 of 311
Found at i:68179677 original size:13 final size:13
Alignment explanation
Indices: 68179659--68179683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68179649 GTTTAATTAG
68179659 TTAATTAGTTTAT
1 TTAATTAGTTTAT
68179672 TTAATTAGTTTA
1 TTAATTAGTTTA
68179684 ATAAACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAATTAGTTTAT
Found at i:68183930 original size:29 final size:29
Alignment explanation
Indices: 68183867--68183934 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
68183857 TAATCAACCA
68183867 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
68183896 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
68183925 CGCACACTTA
1 CGCACACTTA
68183935 CCTTTTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:68184058 original size:174 final size:175
Alignment explanation
Indices: 68183755--68184083 Score: 527
Period size: 174 Copynumber: 1.9 Consensus size: 175
68183745 AACTCAAGGT
* *
68183755 ACTTACCTTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
* * * *
68183820 TAGAAAATATATATTGGGTTGCACACATAACGTTTAGTAATCAACCACGCACACTTAGTGCCATG
66 TAGAAAATATACATTGGGTTACACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
68183885 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
68183930 ACTTACCTTTTT-CGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAA-TTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
** **
68183993 TAGAAAATATACATTGGGTTCACACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCAT
66 TAGAAAATATACATTGGGTT-ACACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCAT
* *
68184058 GTACTTTAAACTCGCACACTTAGTGC
130 GCACTTTAAACTCACACACTTAGTGC
68184084 TGTACAATTT
Statistics
Matches: 141, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
173 23 0.16
174 106 0.75
175 12 0.09
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (175 bp):
ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
TAGAAAATATACATTGGGTTACACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:68184076 original size:29 final size:30
Alignment explanation
Indices: 68184042--68184114 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
68184032 AATCAACCGT
*
68184042 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
68184071 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
*
68184100 GCACACTCAGTGCCA
1 GCACACTTAGTGCCA
68184115 ATCTCATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 31 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:68187233 original size:14 final size:14
Alignment explanation
Indices: 68187214--68187243 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
68187204 GATAAATACT
68187214 TGATTTGTTCTTAA
1 TGATTTGTTCTTAA
68187228 TGATTTGTTCTTAA
1 TGATTTGTTCTTAA
68187242 TG
1 TG
68187244 CTTTAGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.57
Consensus pattern (14 bp):
TGATTTGTTCTTAA
Found at i:68187692 original size:13 final size:13
Alignment explanation
Indices: 68187674--68187698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68187664 AGTTTAATTA
68187674 GTTAATTAGTTTG
1 GTTAATTAGTTTG
68187687 GTTAATTAGTTT
1 GTTAATTAGTTT
68187699 AATAAACAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
GTTAATTAGTTTG
Found at i:68191212 original size:47 final size:46
Alignment explanation
Indices: 68191153--68191610 Score: 371
Period size: 47 Copynumber: 9.7 Consensus size: 46
68191143 CATACATATC
* * * *
68191153 TCACATTAGCCATTCGGCTTCGCCACATATATACACT-TCCACGTTTA
1 TCACATTGGCCATTCGGCTT-ACCACACATATACA-TGTCCACATTTA
** * * * *
68191200 TCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTC-GGCTTACCACACATATACATGTCCACATTTA
* * * * *
68191247 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATATC
1 TCACATTGGCCATTCGG-CTTACCACACATATACATGTCCACATTTA
* * * *
68191294 TCACATTAGCCATTCGGCTTCGCCACATATATACACT-TCCACGTTTA
1 TCACATTGGCCATTCGGCTT-ACCACACATATACA-TGTCCACATTTA
** * * * * *
68191341 TCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTC-GGCTTACCACACATATACATGTCCACATTTA
* * * *
68191388 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTACCACACATATACATGTCCACATTTA
* * * *
68191435 TCACATTGGCCATTCGGCATTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGC-TTACCACACATATACATGTCCACATTTA
* * * * * *
68191482 TCACATTGGCCATTTGGCCGTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTACCACACATATACATGTCCACATTTA
* * * * *
68191529 TCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTACCACACATATACATGTCCACATTTA
* *
68191576 TCACATTGGCCATTCGGCCTTATCACATATATACA
1 TCACATTGGCCATTCGG-CTTACCACACATATACA
68191611 CATTCACATT
Statistics
Matches: 357, Mismatches: 44, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
46 6 0.02
47 343 0.96
48 8 0.02
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCTTACCACACATATACATGTCCACATTTA
Found at i:68191400 original size:141 final size:140
Alignment explanation
Indices: 68191153--68191611 Score: 690
Period size: 141 Copynumber: 3.2 Consensus size: 140
68191143 CATACATATC
*
68191153 TCACATTAGCCATTCGGCTTCGCCACATATATACACTTCCACGTTTATCACATTGGCCATTCTAC
1 TCACATTAGCCATTCGGCTT-ACCACATATATACACTTCCACGTTTATCACATTGGCCATTCTAC
68191218 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
65 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
68191283 GTTCACATATC-
130 GTTCACAT-TCA
*
68191294 TCACATTAGCCATTCGGCTTCGCCACATATATACACTTCCACGTTTATCACATTGGCCATTCTAC
1 TCACATTAGCCATTCGGCTT-ACCACATATATACACTTCCACGTTTATCACATTGGCCATTCTAC
*
68191359 CTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
65 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
68191424 GTTCACATTCA
130 GTTCACATTCA
* * * * * * *
68191435 TCACATTGGCCATTCGGCATTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATT-TG
1 TCACATTAGCCATTCGGC-TTACCACATATATACACT-TCCACGTTTATCACATTGGCCATTCT-
* * * *
68191498 GCCGTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACATATATGC
63 ACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGC
68191563 ATGTTCACATTCA
128 ATGTTCACATTCA
* *
68191576 TCACATTGGCCATTCGGCCTTATCACATATATACAC
1 TCACATTAGCCATTCGG-CTTACCACATATATACAC
68191612 ATTCACATTC
Statistics
Matches: 296, Mismatches: 16, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
140 4 0.01
141 289 0.98
142 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (140 bp):
TCACATTAGCCATTCGGCTTACCACATATATACACTTCCACGTTTATCACATTGGCCATTCTACC
TTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
TTCACATTCA
Found at i:68191438 original size:25 final size:25
Alignment explanation
Indices: 68191409--68191486 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 25
68191399 ATTCGGCCTT
68191409 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
68191434 AT--CACAT-TGGCCA--TTCGGCATT-
1 ATCACACATAT-G-CATGTTC-ACATTC
68191456 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
68191481 ATCACA
1 ATCACA
68191487 TTGGCCATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
22 6 0.14
23 12 0.29
24 12 0.29
25 12 0.29
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:68191617 original size:47 final size:47
Alignment explanation
Indices: 68191199--68191624 Score: 597
Period size: 47 Copynumber: 9.1 Consensus size: 47
68191189 TTCCACGTTT
** *
68191199 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
68191246 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATATC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT-TC
* ** * * * *
68191294 -TCACATTAGCCATTCGG-CTTCGCCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTT-ATCACATATATGCA-TGTTCACATTC
**
68191340 ATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
68191387 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
68191434 ATCACATTGGCCATTCGGCATTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * *
68191481 ATCACATTGGCCATTTGGCCGTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
68191528 ATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* **
68191575 ATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
68191622 ATC
1 ATC
68191625 TCATAAAATC
Statistics
Matches: 339, Mismatches: 34, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
46 5 0.01
47 328 0.97
48 6 0.02
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
Found at i:68211245 original size:48 final size:48
Alignment explanation
Indices: 68211174--68211868 Score: 1066
Period size: 48 Copynumber: 14.3 Consensus size: 48
68211164 TGTACAAGAT
* * * * *
68211174 AAATAAGTATGGGATATGTATATGTAGCAAAGCCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211222 AAATATATATGAGATATGTATATGTGGTAAAGCCTAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211270 AAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
68211320 AAATAAGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTACTGCG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
68211368 AAATATATATTAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211416 AAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211466 AAATATGTATGAGAAATGTATATATGTGATAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211516 AAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211564 AAATATATATGAGATATGTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211614 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211662 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211710 AAATATGTATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
68211758 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211806 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211854 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
68211869 GTGTGTATAT
Statistics
Matches: 595, Mismatches: 46, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
48 411 0.69
50 184 0.31
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:68211860 original size:96 final size:96
Alignment explanation
Indices: 68211174--68211868 Score: 1066
Period size: 98 Copynumber: 7.2 Consensus size: 96
68211164 TGTACAAGAT
* * * * * *
68211174 AAATAAGTATGGGATATGTATATGTAGCAAAGCCGAATGGCTACTGTGAAATATATATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
*
68211239 GTATATGTGGTAAAGCCTAATGGCTAATGTG
66 GTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211270 AAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAGTATGAGAT
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* * *
68211335 ATGTATATGTGGCAAAGCCGAATGGCTACTGCG
64 ATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
68211368 AAATATATATTAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGAAAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
68211433 GTATATATGTGGTAAAGCCGAATGGCTAATGTG
66 G--TATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211466 AAATATGTATGAGAAATGTATATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
68211531 ATGTATATGTGGTAAAGTCGAATGGCTACTGTG
64 ATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211564 AAATATATATGAGATATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTACGAGAT
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
68211629 ATGTATATGTGGTAAAGCCGAATGGCTACTGTG
64 ATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
68211662 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
*
68211727 GTATAAGTGGTAAAGCCGAATGGCTAATGTG
66 GTATATGTGGTAAAGCCGAATGGCTAATGTG
68211758 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
*
68211823 GTATATGTGGTAAAGCCGAATGGCTAGTGTG
66 GTATATGTGGTAAAGCCGAATGGCTAATGTG
*
68211854 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
68211869 GTGTGTATAT
Statistics
Matches: 550, Mismatches: 43, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
96 241 0.44
98 264 0.48
100 45 0.08
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
GTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:68215687 original size:35 final size:35
Alignment explanation
Indices: 68215638--68215878 Score: 268
Period size: 35 Copynumber: 6.9 Consensus size: 35
68215628 TTTTATATGG
* * *
68215638 CCGAATATATAAGTTCAATATATCATCACATGTAA
1 CCGAATATACAAGTTCAATATAACCTCACATGTAA
* * * * * * **
68215673 CCTAATGTTCAAGTTCAATA-AACCAGCTCATATGG
1 CCGAATATACAAGTTCAATATAACC-TCACATGTAA
* *
68215708 CCGAATATACAAATTCAATATAATCTCACATGTAA
1 CCGAATATACAAGTTCAATATAACCTCACATGTAA
*
68215743 CCGAATATACAAGTTCAATATAAGCTCACATGTAA
1 CCGAATATACAAGTTCAATATAACCTCACATGTAA
* * * * *
68215778 TCGAATACATAAGTTCAATATAACCTCACATCTAG
1 CCGAATATACAAGTTCAATATAACCTCACATGTAA
* * *
68215813 CCAAATATACAAGTTCAATATAACCTCACATGCAG
1 CCGAATATACAAGTTCAATATAACCTCACATGTAA
68215848 CCGAATATACAAGTTCAATATAACCTCACAT
1 CCGAATATACAAGTTCAATATAACCTCACAT
68215879 TTACTTACCT
Statistics
Matches: 168, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
34 2 0.01
35 163 0.97
36 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.27
Consensus pattern (35 bp):
CCGAATATACAAGTTCAATATAACCTCACATGTAA
Found at i:68225772 original size:47 final size:47
Alignment explanation
Indices: 68225703--68225969 Score: 256
Period size: 47 Copynumber: 5.7 Consensus size: 47
68225693 GTGTGTATAC
68225703 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
68225750 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
** *
68225797 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCTATATGTGAT-AAG
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGC-CGATGTGATGAAT
*** **** * *** **** *
68225844 GCCTAA-TG-GCCGATGTGATAATGTGAAAGTGTATATATGTGAT-AAG
1 GTGAAAGTGTATATATGTGATAAGGCCTAA-TG-GCCGATGTGATGAAT
*** **
68225890 GCCTAA-TGGCTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
68225936 GTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGC
68225970 TATATGTGAT
Statistics
Matches: 180, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
45 19 0.11
46 31 0.17
47 123 0.68
48 7 0.04
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:68225838 original size:23 final size:23
Alignment explanation
Indices: 68225808--68225992 Score: 185
Period size: 23 Copynumber: 8.0 Consensus size: 23
68225798 TGAAAGTGTA
68225808 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
68225831 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
** * *** **
68225854 -CGATGTGATAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAA-TGGC
68225877 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
68225900 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
** * *** **
68225923 -CGATGTGATGAATGTGAAAGTGTA
1 TATATGTGAT-AAGGCCTAA-TGGC
68225947 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
68225970 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
68225993 CGATGTGATG
Statistics
Matches: 125, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
22 19 0.15
23 80 0.64
24 19 0.15
25 7 0.06
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (23 bp):
TATATGTGATAAGGCCTAATGGC
Found at i:68225842 original size:70 final size:70
Alignment explanation
Indices: 68225761--68226039 Score: 551
Period size: 70 Copynumber: 4.0 Consensus size: 70
68225751 TGAAAGTGTA
68225761 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
68225826 ATGGC
66 ATGGC
68225831 TATATGTGATAAGGCCTAATGGCCGATGTGAT-AATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
68225895 ATGGC
66 ATGGC
68225900 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
68225965 ATGGC
66 ATGGC
68225970 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
68226035 ATGGC
66 ATGGC
68226040 CGATGTGATG
Statistics
Matches: 208, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
69 69 0.33
70 139 0.67
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (70 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGC
Found at i:68225967 original size:139 final size:140
Alignment explanation
Indices: 68225761--68226039 Score: 551
Period size: 139 Copynumber: 2.0 Consensus size: 140
68225751 TGAAAGTGTA
68225761 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
68225826 ATGGCTATATGTGATAAGGCCTAATGGCCGATGTGAT-AATGTGAAAGTGTATATATGTGATAAG
66 ATGGCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
68225890 GCCTAATGGC
131 GCCTAATGGC
68225900 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
68225965 ATGGCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 ATGGCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
68226030 GCCTAATGGC
131 GCCTAATGGC
68226040 CGATGTGATG
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 102 0.73
140 37 0.27
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (140 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATGGC
Found at i:68226028 original size:47 final size:47
Alignment explanation
Indices: 68225970--68226123 Score: 281
Period size: 47 Copynumber: 3.3 Consensus size: 47
68225960 GCCTAATGGC
68225970 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
68226017 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
68226064 TATATGTGATAAGGCCTAATGGCCGACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
68226111 TAAATGTGATAAG
1 TATATGTGATAAG
68226124 TCCCGAAGGG
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:68226298 original size:37 final size:37
Alignment explanation
Indices: 68226242--68226320 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
68226232 CCGAGCTCTA
* * *
68226242 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
68226279 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
68226316 AAGAC
1 AAGAC
68226321 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:68227891 original size:34 final size:34
Alignment explanation
Indices: 68227853--68227922 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
68227843 TTAACCCCTC
*
68227853 TTTCAATAGCAGTAGCAGTCTCGGCCTGAGCCCA
1 TTTCAATAACAGTAGCAGTCTCGGCCTGAGCCCA
* * * *
68227887 TTTCAGTAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAATAACAGTAGCAGTCTCGGCCTGAGCCCA
68227921 TT
1 TT
68227923 ACATTACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (34 bp):
TTTCAATAACAGTAGCAGTCTCGGCCTGAGCCCA
Found at i:68228384 original size:18 final size:19
Alignment explanation
Indices: 68228344--68228384 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
68228334 CATATCGCAG
*
68228344 GCCCATGTGGACCTACACA
1 GCCCATGTGGACCCACACA
*
68228363 -CCCATGTGG-CCCACATA
1 GCCCATGTGGACCCACACA
68228380 GCCCA
1 GCCCA
68228385 AACATGGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.24, C:0.41, G:0.20, T:0.15
Consensus pattern (19 bp):
GCCCATGTGGACCCACACA
Found at i:68230760 original size:93 final size:91
Alignment explanation
Indices: 68230603--68230771 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 91
68230593 GCCCCTAAGT
*
68230603 GAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
68230668 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
*
68230694 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68230759 CGAGTTCGGATGC
64 CGAGTTCGGATGC
68230772 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:68230787 original size:46 final size:44
Alignment explanation
Indices: 68230598--68230779 Score: 190
Period size: 44 Copynumber: 4.0 Consensus size: 44
68230588 AACCCGCCCC
* * * *
68230598 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
68230642 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGC-A---ACCA
* * * *
68230688 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAACCA
*
68230735 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
68230779 T
1 T
68230780 CCTAGTGACA
Statistics
Matches: 114, Mismatches: 13, Indels: 22
0.77 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 44 0.39
45 2 0.02
46 30 0.26
47 30 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
Found at i:68231225 original size:30 final size:30
Alignment explanation
Indices: 68231191--68231250 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68231181 ATTTAATACG
68231191 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
68231221 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
68231251 GGCTCGCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:68238258 original size:45 final size:46
Alignment explanation
Indices: 68238097--68238267 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
68238087 GTAACCCCCC
* * *
68238097 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
68238142 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
68238190 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
68238235 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
68238268 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 41 0.38
46 20 0.19
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:68238259 original size:92 final size:92
Alignment explanation
Indices: 68238102--68238270 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
68238092 CCCCCTAAGT
* *
68238102 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
68238167 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
68238194 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68238258 CGAGTTCGGATGC
65 CGAGTTCGGATGC
68238271 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 41 0.56
93 32 0.44
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68241892 original size:11 final size:11
Alignment explanation
Indices: 68241873--68241902 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
68241863 GACTCAGGTA
68241873 CATACGAGATT
1 CATACGAGATT
*
68241884 CATATGAGATT
1 CATACGAGATT
68241895 CATACGAG
1 CATACGAG
68241903 TATTGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (11 bp):
CATACGAGATT
Found at i:68255853 original size:67 final size:67
Alignment explanation
Indices: 68255732--68255879 Score: 235
Period size: 67 Copynumber: 2.2 Consensus size: 67
68255722 CACCAGAGAA
* * * *
68255732 ATTGCAACGAGGCTGCCAAATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTACCAAATATTGTGACCAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
68255797 AG
66 AG
*
68255799 ATTGCAGCGAGGCTACCAGATATTGTGACCAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTACCAAATATTGTGACCAAGTCACCAGATACAGATAT-TGTGGCGAGGCCAC
68255863 CAG
65 CAG
68255866 ATTGCAGCGAGGCT
1 ATTGCAGCGAGGCT
68255880 GCTAGAACAC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
66 8 0.11
67 67 0.89
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (67 bp):
ATTGCAGCGAGGCTACCAAATATTGTGACCAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
AG
Found at i:68256138 original size:8 final size:8
Alignment explanation
Indices: 68256121--68256157 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
68256111 TACCAAAGTG
*
68256121 GGCCCGTT
1 GGCCCATT
68256129 GGCCCATT
1 GGCCCATT
*
68256137 GGCCCGTT
1 GGCCCATT
68256145 GGCCCATT
1 GGCCCATT
68256153 GGCCC
1 GGCCC
68256158 GTTTTCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.41, G:0.32, T:0.22
Consensus pattern (8 bp):
GGCCCATT
Found at i:68256142 original size:16 final size:16
Alignment explanation
Indices: 68256121--68256160 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
68256111 TACCAAAGTG
68256121 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
68256137 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
68256153 GGCCCGTT
1 GGCCCGTT
68256161 TTCGGCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.33, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:68271496 original size:10 final size:10
Alignment explanation
Indices: 68271459--68271507 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
68271449 TTTAATATGT
68271459 TTAATTTTAA
1 TTAATTTTAA
*
68271469 TTAAATTTATA
1 TTAATTTTA-A
68271480 TTAAATTTTAA
1 TT-AATTTTAA
*
68271491 TTAATTTTGA
1 TTAATTTTAA
68271501 -TAATTTT
1 TTAATTTT
68271508 CGACTGAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 7 0.21
10 15 0.44
11 6 0.18
12 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:68289233 original size:20 final size:20
Alignment explanation
Indices: 68289208--68289247 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
68289198 GTAATAATAG
*
68289208 TAATTCAACCATATTAACAC
1 TAATTCAACCATATAAACAC
*
68289228 TAATTCATCCATATAAACAC
1 TAATTCAACCATATAAACAC
68289248 ATACCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATTCAACCATATAAACAC
Found at i:68289435 original size:23 final size:21
Alignment explanation
Indices: 68289409--68289484 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 21
68289399 CGGATGAACA
68289409 GTAAGCTCTATTGAACTGAAATG
1 GTAAGCTCTA-T-AACTGAAATG
68289432 GTAAGCTCTATCAAGCTGAACA--
1 GTAAGCTCTAT-AA-CTGAA-ATG
*
68289454 GTAAGCTCATACTAGCTGAAATG
1 GTAAGCTC-TA-TAACTGAAATG
68289477 GTAAGCTC
1 GTAAGCTC
68289485 CAATGAGGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
21 1 0.02
22 16 0.36
23 26 0.58
24 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (21 bp):
GTAAGCTCTATAACTGAAATG
Found at i:68289473 original size:22 final size:22
Alignment explanation
Indices: 68289403--68289461 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
68289393 CTTGATCGGA
*
68289403 TGAACAGTAAGCTCTATTGAA-C
1 TGAACAGTAAGCTCTA-TCAAGC
68289425 TGAA-ATGGTAAGCTCTATCAAGC
1 TGAACA--GTAAGCTCTATCAAGC
68289448 TGAACAGTAAGCTC
1 TGAACAGTAAGCTC
68289462 ATACTAGCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 1 0.03
22 15 0.47
23 15 0.47
24 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCAAGC
Found at i:68289710 original size:23 final size:23
Alignment explanation
Indices: 68289684--68289732 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
68289674 ATGATCAATA
*
68289684 ATTCAATT-TATTAAATTATATAC
1 ATTCAATTCAATTAAA-TATATAC
*
68289707 ATTCAATTCAATTAAATATATGC
1 ATTCAATTCAATTAAATATATAC
68289730 ATT
1 ATT
68289733 TAAATACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTCAATTCAATTAAATATATAC
Found at i:68292140 original size:43 final size:44
Alignment explanation
Indices: 68291987--68292151 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 44
68291977 TTCCAACATG
* * *
68291987 TGATTTCGTGTAAGACCATGTCTGGGA-AGTTGGCATCGACT-TGA
1 TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCATC-AATAT-A
* *
68292031 -GATCTACGTGTAAAACCATGTCTGGGACA--TAGGCATC-GTATA
1 TGAT-TACGTGTAAGACCATGTCTGGGACAGCT-GGCATCAATATA
* * * *
68292073 TGATTTCGTGTATGACCTTGTCTGGGACAG-TGGCATCAATATT
1 TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCATCAATATA
* *
68292116 TGATTACATGTAAGACCACGTCTGGGAC-GCTGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCAT
68292152 TGTACAGGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
42 30 0.30
43 41 0.41
44 27 0.27
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (44 bp):
TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCATCAATATA
Found at i:68308674 original size:13 final size:13
Alignment explanation
Indices: 68308656--68308688 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
68308646 AGAATCTGAA
68308656 AAGAAGCTAACAC
1 AAGAAGCTAACAC
68308669 AAGAAGCTAACAC
1 AAGAAGCTAACAC
68308682 AAGAAGC
1 AAGAAGC
68308689 CGTGGTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.18, T:0.06
Consensus pattern (13 bp):
AAGAAGCTAACAC
Found at i:68322949 original size:39 final size:39
Alignment explanation
Indices: 68322895--68322974 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
68322885 ACCAAAATAC
68322895 ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
1 ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
*
68322934 ATAGATTCAAAAGTACCAAAGTGATAGCTTGATAGTGTG
1 ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
68322973 AT
1 AT
68322975 GAGGTCTTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (39 bp):
ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
Found at i:68326319 original size:27 final size:27
Alignment explanation
Indices: 68326289--68326491 Score: 248
Period size: 27 Copynumber: 7.6 Consensus size: 27
68326279 ATATTGAGTC
* * * *
68326289 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
68326316 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
68326343 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
68326370 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
68326397 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
68326423 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68326450 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68326477 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68326492 GTACAATTTA
Statistics
Matches: 155, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 22 0.14
27 133 0.86
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:68326453 original size:80 final size:80
Alignment explanation
Indices: 68326289--68326490 Score: 244
Period size: 80 Copynumber: 2.5 Consensus size: 80
68326279 ATATTGAGTC
* * * * * * * **
68326289 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCAT-CAT-TTCATTTCGCACACTTA
* *
68326353 GTGCTACATAGTCAACT
64 GTGCAACATAGTCAAAT
* * *
68326370 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
68326435 GCAACATAGTCAAAT
66 GCAACATAGTCAAAT
*
68326450 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGC
68326491 TGTACAATTT
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 66 0.64
81 36 0.35
82 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
GCAACATAGTCAAAT
Found at i:68334384 original size:27 final size:27
Alignment explanation
Indices: 68334354--68334550 Score: 196
Period size: 27 Copynumber: 7.6 Consensus size: 27
68334344 ATATTGAGTC
* * *
68334354 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
68334381 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
68334408 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
* * *
68334436 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
68334463 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
68334489 CGCACACTTAGTGCAACATAGTC-A-T
1 CGCACACTTAGTGCTACATAGTCAACT
*
68334514 CGCACAC-TAGT-C-A-AT-GTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
68334536 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68334551 GTACAATTTA
Statistics
Matches: 147, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.02
21 3 0.02
22 9 0.06
23 5 0.03
24 5 0.03
25 8 0.05
26 23 0.16
27 67 0.46
28 24 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:68334448 original size:55 final size:52
Alignment explanation
Indices: 68334375--68334549 Score: 216
Period size: 55 Copynumber: 3.4 Consensus size: 52
68334365 TGCTATATAA
68334375 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC-ACAT-G
* * * *
68334429 TCAATCTCGCACACTTAGTGCCACATGGTCAATTCGCACACTTAGTGCATCATT
1 TCAA-CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCA-CATG
**
68334483 TCATTTCGCACACTTAGTGCAACATAGTC--ATCGCACAC-TAGT-CA-ATG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATG
*
68334530 TCAAATCGCACACTTAGTGC
1 TCAACTCGCACACTTAGTGC
68334550 TGTACAATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
47 20 0.19
49 2 0.02
50 4 0.04
51 8 0.07
53 22 0.21
54 8 0.07
55 43 0.40
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (52 bp):
TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATG
Found at i:68338676 original size:47 final size:47
Alignment explanation
Indices: 68338553--68338687 Score: 166
Period size: 47 Copynumber: 2.9 Consensus size: 47
68338543 AATAAAGTAC
* * *
68338553 CAATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATAG
1 CAATGCCATGTCCCAGACATGGTCTTACA-CAAGCACACATATCATAG
* *
68338600 TCAATGCCATGTCCCAGACATGTTTTTACACAAGCACACATATCATTA-
1 -CAATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCA-TAG
* *
68338648 CGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
1 CAATGCCATGTCCCAGACATGGTCTTACACAAGCACACAT
68338688 TAATATGGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 39 0.51
48 35 0.46
49 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (47 bp):
CAATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATAG
Found at i:68344161 original size:27 final size:27
Alignment explanation
Indices: 68344131--68344289 Score: 138
Period size: 27 Copynumber: 5.9 Consensus size: 27
68344121 ATTACTAAAG
* * *
68344131 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
68344158 TACCCTCAATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
68344185 TACCCTTGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
68344212 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * ***
68344239 TACCATCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCATTT
* *
68344266 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
68344290 AAATACCCTC
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:68344292 original size:27 final size:27
Alignment explanation
Indices: 68344248--68344530 Score: 186
Period size: 27 Copynumber: 10.5 Consensus size: 27
68344238 TTACCATCGA
*
68344248 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
*
68344275 TTTACAAAATTACCAAAATACCC-TCG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
68344301 ATCAGTAAAATTACCAAAATACCC-TGG
1 TTTA-CAAAATTACCAAAATACCCTTGG
* ** * * *
68344328 TCTGTAAAATTGCTAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
68344355 TTTATAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
**
68344382 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
* * ***
68344409 TTGT--GAAATTACCGAAATACCCTCAA
1 TT-TACAAAATTACCAAAATACCCTTGG
** * *
68344435 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGG
*
68344462 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* *
68344490 TTT-CTAAAAATTA-TAGAAATACCTTTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
68344518 TTTACAAAATTAC
1 TTTACAAAATTAC
68344531 TGAAATAACC
Statistics
Matches: 207, Mismatches: 36, Indels: 25
0.77 0.13 0.09
Matches are distributed among these distances:
25 2 0.01
26 40 0.19
27 137 0.66
28 8 0.04
29 20 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:68344302 original size:54 final size:54
Alignment explanation
Indices: 68344185--68344487 Score: 224
Period size: 54 Copynumber: 5.6 Consensus size: 54
68344175 ATTATCGTTT
* * *** * * * * ***
68344185 TACCCTTGATTTATAAAATTACTATTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * **
68344239 TACCATCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
68344293 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
68344346 TACCC-CTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * ***
68344400 TACCACT-G-GTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
68344453 TACCC-CTGATTTACAAAATTA-CAGAAATACCCTTG
1 TACCCTC-GATTTATAAAATTACCA-AAATACCCTTG
68344488 ACTTTCTAAA
Statistics
Matches: 197, Mismatches: 42, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
52 2 0.01
53 87 0.44
54 107 0.54
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:68344356 original size:80 final size:80
Alignment explanation
Indices: 68344253--68344458 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
68344243 ATCGATTTAC
*
68344253 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
68344317 AAATACC-CTGGTCTGT
65 AAATACCACTGGT-TGT
* * * **
68344333 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
68344398 AATACCACTGGTTGT
66 AATACCACTGGTTGT
* ** ** **
68344413 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTACAAAATTACCAAAATACCCC
68344459 TGATTTACAA
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
79 6 0.05
80 99 0.90
81 5 0.05
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTTGT
Found at i:68344363 original size:53 final size:53
Alignment explanation
Indices: 68344248--68344567 Score: 243
Period size: 53 Copynumber: 5.9 Consensus size: 53
68344238 TTACCATCGA
* * * ** *
68344248 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * * *
68344301 ATCAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGG
*
68344355 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGG
1 TTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * *
68344409 -TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTGG
* * * * **
68344462 TTTACAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCTTTGG
1 TTTATAAAATTACCA-AAATACCC-T-AGTTTGT-AAAATTACCA-AAATACCCCTGG
* ** * * * *
68344518 TTTACAAAATTACTGAAATAACCCTATTTTGTAGATTTACCAAAACACCC
1 TTTATAAAATTACCAAAAT-ACCCTAGTTTGTAAAATTACCAAAATACCC
68344568 TTGTAGGGTG
Statistics
Matches: 212, Mismatches: 43, Indels: 23
0.76 0.15 0.08
Matches are distributed among these distances:
52 4 0.02
53 79 0.37
54 79 0.37
55 13 0.06
56 33 0.16
57 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
TTTATAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGG
Found at i:68344471 original size:80 final size:80
Alignment explanation
Indices: 68344253--68344485 Score: 235
Period size: 80 Copynumber: 2.9 Consensus size: 80
68344243 ATCGATTTAC
* * ** * *
68344253 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTACC
1 AAAATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCT-GATTTA-TAAAATTACC
68344316 AAAATACCCTGGTCTGT
64 AAAATACCCTGGTCTGT
* * ** *
68344333 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTGA-TTTATAAAATTACCA
68344397 AAATACCACTGGT-TGT
65 AAATACC-CTGGTCTGT
* * * *
68344413 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CA
1 AAAATTACCAAAATACCCCT-AATTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
68344476 GAAATACCCT
65 -AAATACCCT
68344486 TGACTTTCTA
Statistics
Matches: 132, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.07
80 112 0.85
81 11 0.08
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCAA
AATACCCTGGTCTGT
Found at i:68344631 original size:27 final size:27
Alignment explanation
Indices: 68344601--68344661 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
68344591 ACCCCTATTA
* *
68344601 GGTAAAAAGACTGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAACCCCTGTAG
** *
68344628 GGTAAAGGGACCGTAAAACCCCTGTAT
1 GGTAAAAAGACCGTAAAACCCCTGTAG
68344655 GGTAAAA
1 GGTAAAA
68344662 TGACGAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAACCCCTGTAG
Found at i:68345864 original size:24 final size:24
Alignment explanation
Indices: 68345734--68345863 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
68345724 CTGGAAGCCT
* *
68345734 AGCCTCTTTTAATTACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
68345759 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
68345783 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
68345807 AGCCCTTTTAGTAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
68345831 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
68345855 AGCCCTTTT
1 AGCCCTTTT
68345864 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 94 0.96
25 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:68348929 original size:31 final size:31
Alignment explanation
Indices: 68348891--68348999 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
68348881 GTTTACAGTA
*
68348891 AAGGCTTCAGCCCAGAGATATGATTTATGAT
1 AAGGCTTCAGCCCAGTGATATGATTTATGAT
*
68348922 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCAGCCCAGTGATATGATTTATGAT
* *
68348953 AAGGCTTCAGCCCAGTGATGTGATTTATGAA
1 AAGGCTTCAGCCCAGTGATATGATTTATGAT
**
68348984 AAGGCTTTGGCCCAGT
1 AAGGCTTCAGCCCAGT
68349000 AACTGTTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAGGCTTCAGCCCAGTGATATGATTTATGAT
Found at i:68351443 original size:27 final size:27
Alignment explanation
Indices: 68351313--68351443 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
68351303 ATTACCAAAG
* * *
68351313 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
68351340 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
68351367 TAACCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
68351394 TACCCTTGATTTGCAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
68351421 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
68351444 AAAATACCCT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 85 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:68351451 original size:27 final size:27
Alignment explanation
Indices: 68351421--68351667 Score: 161
Period size: 27 Copynumber: 9.2 Consensus size: 27
68351411 ATTACTGTTT
*
68351421 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
68351448 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * *
68351475 TAGCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* ** * *
68351502 TACCCTAG-TTTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
68351528 TACCC-CTGGTTTATAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* **
68351555 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * **
68351582 TACCACT-GGTTGT--GAAATTACTGAAA
1 TACC-CTCGATT-TACAAAATTACCAAAA
* **
68351608 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
68351635 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
68351662 TACCCT
1 TACCCT
68351668 TGACTTTCTG
Statistics
Matches: 172, Mismatches: 34, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
25 3 0.02
26 39 0.23
27 128 0.74
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:68351452 original size:54 final size:55
Alignment explanation
Indices: 68351348--68351469 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 55
68351338 TTTACCCTCA
* * ***
68351348 ATTTACAGAATTA-TCGTTTTAACCTCGATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTCGTTTTAACCTCGATTTACAAAATTACTAAAATACCCTTG
* *
68351402 ATTTGCAGAATTACT-GTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAGAATTACTCGTTTTAACCTCGATTTACAAAATTACTAAAATACCCTTG
* *
68351456 GTTTACAAAATTAC
1 ATTTACAGAATTAC
68351470 CAAAATAGCC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (55 bp):
ATTTACAGAATTACTCGTTTTAACCTCGATTTACAAAATTACTAAAATACCCTTG
Found at i:68351482 original size:54 final size:54
Alignment explanation
Indices: 68351424--68351744 Score: 255
Period size: 53 Copynumber: 6.0 Consensus size: 54
68351414 ACTGTTTTAC
* **
68351424 CCTC-GATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA
1 CCTCTGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATA
* * * * *
68351477 GCCTC-GA-TCAGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTGCTAAAATA
1 -CCTCTGATTTA-CAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATA
* * * * *
68351530 CCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA
1 CCTCTGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATA
* * * * * *
68351584 CCACTGGTTGT--GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATA
1 CCTCTGATT-TACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATA
* * * *
68351637 CCCCTGATTTACAAAATTAC-AGAAATACCCTTGACTTTCTGAAAATTA-TAGAAATA
1 CCTCTGATTTACAAAATTACTA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAATA
* * * * *
68351693 CCAT-TGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 CC-TCTGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
68351745 CACCCTTGTA
Statistics
Matches: 216, Mismatches: 37, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
52 4 0.02
53 83 0.38
54 78 0.36
55 12 0.06
56 39 0.18
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
CCTCTGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATA
Found at i:68351538 original size:80 final size:80
Alignment explanation
Indices: 68351435--68351640 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
68351425 CTCGATTTAC
* *
68351435 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATAGCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATA-CCCCGAGTCAGTAAAATTACCA
*
68351499 AAATACC-CTAGTTTGT
65 AAATACCACT-GGTTGT
* * * **
68351515 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
68351580 AATACCACTGGTTGT
66 AATACCACTGGTTGT
* * ** **
68351595 GAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTACAAAATTACCAAAATACCCC
68351641 TGATTTACAA
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.07
80 99 0.91
81 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTTGT
Found at i:68351545 original size:53 final size:53
Alignment explanation
Indices: 68351430--68351749 Score: 243
Period size: 54 Copynumber: 5.9 Consensus size: 53
68351420 TTACCCTCGA
* * * ** * *
68351430 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-GCCTCG
1 TTTATAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGG
* * * *
68351483 ATCAGTAAAATTACCAAAATACCCTAGTTTGTAAAATTGCTAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGG
*
68351537 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGG
1 TTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGG
* * ** * *
68351591 -TTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTGG
* * * * **
68351644 TTTACAAAATTA-CAGAAATACCCTTGACTTTCTGAAAATTA-TAGAAATACCATTGG
1 TTTATAAAATTACCA-AAATACCC-T-AGTTTGT-AAAATTACCA-AAATACCCCTGG
* ** * * * *
68351700 TTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TTTATAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCC
68351750 TTGTAAGGTG
Statistics
Matches: 211, Mismatches: 45, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
52 4 0.02
53 77 0.36
54 80 0.38
55 12 0.06
56 38 0.18
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (53 bp):
TTTATAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGG
Found at i:68351641 original size:80 final size:80
Alignment explanation
Indices: 68351435--68351667 Score: 233
Period size: 80 Copynumber: 2.9 Consensus size: 80
68351425 CTCGATTTAC
* ** * * * **
68351435 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-GCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
*
68351499 AAATACCCTAGTTTGT
65 AAATACCCTAGGTTGT
* **
68351515 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
68351580 AATACCACT-GGTTGT
66 AATACC-CTAGGTTGT
* * * **
68351595 GAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTA-C
1 AAAATTACTAAAATACCCCT-AATTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACC
68351657 AGAAATACCCT
64 A-AAATACCCT
68351668 TGACTTTCTG
Statistics
Matches: 132, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
79 9 0.07
80 117 0.89
81 6 0.05
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCTAGGTTGT
Found at i:68351717 original size:27 final size:27
Alignment explanation
Indices: 68351394--68351729 Score: 146
Period size: 27 Copynumber: 12.4 Consensus size: 27
68351384 ATTACTATTT
* * * ***
68351394 TACCCTTGATTTGCAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTGAAA
* * *
68351421 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
**
68351448 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * * * * **
68351475 TAGCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACTGAAA
* ** * *
68351502 TACCC-TAGTTTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * **
68351528 TACCCCTGGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * ** **
68351555 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
*
68351582 TACCAC-TGGTTGT--GAAATTACTGAAA
1 TACC-CTTGGTT-TACAAAATTACTGAAA
*** ** **
68351608 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * *
68351635 TACCCCTGATTTACAAAATTACAGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
*
68351662 TACCCTTGACTTT-CTGAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACT-GAAA
*
68351691 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
68351718 TACCCTTGGTTT
1 TACCCTTGGTTT
68351730 GTAGATTTAC
Statistics
Matches: 245, Mismatches: 51, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
25 2 0.01
26 37 0.15
27 178 0.73
28 9 0.04
29 19 0.08
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTGAAA
Found at i:68351813 original size:27 final size:26
Alignment explanation
Indices: 68351783--68351842 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
68351773 ACCCCTATTA
*
68351783 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAA-ACCCTGTAG
*** *
68351810 GGTAAGGTGACCGTAAAACCCTGTAT
1 GGTAAAAAGACCGTAAAACCCTGTAG
68351836 GGTAAAA
1 GGTAAAA
68351843 TGACGAATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (26 bp):
GGTAAAAAGACCGTAAAACCCTGTAG
Found at i:68351846 original size:26 final size:27
Alignment explanation
Indices: 68351783--68351846 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
68351773 ACCCCTATTA
* *
68351783 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGACCCTGTAG
** *
68351810 GGTAAGGTGACCGTAAA-ACCCTGTAT
1 GGTAAAATGACCGTAAAGACCCTGTAG
68351836 GGTAAAATGAC
1 GGTAAAATGAC
68351847 GAATATGCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGACCCTGTAG
Found at i:68352737 original size:24 final size:25
Alignment explanation
Indices: 68352655--68352748 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
68352645 AGGAAGTGCT
*
68352655 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
68352680 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
68352705 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
68352729 AAAAAGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
68352749 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 18 0.29
25 45 0.71
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:68352760 original size:24 final size:25
Alignment explanation
Indices: 68352655--68352761 Score: 107
Period size: 25 Copynumber: 4.4 Consensus size: 25
68352645 AGGAAGTGCT
* *
68352655 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
* *
68352679 GAAAAG-GGCTTTGCCCCAATTTACC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
68352704 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
* *
68352729 AAAA-AGGCTTTGCCCTAG-TTATT
1 AAAAGAGGCTTTGCCCCAGTTTATC
68352752 AAAAGAGGCT
1 AAAAGAGGCT
68352762 AGGCCTCTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 8 0.11
24 21 0.28
25 45 0.61
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:68353045 original size:31 final size:31
Alignment explanation
Indices: 68352967--68353050 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
68352957 CTTTTACAGT
*
68352967 AAAGGCTTCGGCCCAGAGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
68352998 TAAGGCTTCGGCCCAGTGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
68353029 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
68353051 CCAAGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:68354409 original size:24 final size:24
Alignment explanation
Indices: 68354381--68354449 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
68354371 TCAGGAGAAG
* *
68354381 TTTAGGTGCTAATAAGGGAGAGGA
1 TTTAGGAGCTGATAAGGGAGAGGA
*
68354405 TTTAGAAGCTGATAAGGGAGAGGA
1 TTTAGGAGCTGATAAGGGAGAGGA
*
68354429 TTTAGGAGCTGATTAGGGAGA
1 TTTAGGAGCTGATAAGGGAGA
68354450 ACGGTGTTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.33, C:0.04, G:0.38, T:0.25
Consensus pattern (24 bp):
TTTAGGAGCTGATAAGGGAGAGGA
Found at i:68355324 original size:92 final size:92
Alignment explanation
Indices: 68355167--68355358 Score: 375
Period size: 92 Copynumber: 2.1 Consensus size: 92
68355157 TTTATCTTGA
68355167 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
1 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
68355232 AGTCGCTAACTTCGGCAAAGGTAGGAT
66 AGTCGCTAACTTCGGCAAAGGTAGGAT
68355259 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
1 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
68355324 AGTCGCTAACTTCGGCAAAGGTAGGAT
66 AGTCGCTAACTTCGGCAAAGGTAGGAT
*
68355351 TGCTAGTG
1 TGATAGTG
68355359 CCTAAGGTGT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 99 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (92 bp):
TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
AGTCGCTAACTTCGGCAAAGGTAGGAT
Found at i:68355550 original size:16 final size:15
Alignment explanation
Indices: 68355524--68355553 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
68355514 ACTAGATCGG
68355524 CGAAAGCCGAAAAGC
1 CGAAAGCCGAAAAGC
68355539 CGAAATGCCGAAAAG
1 CGAAA-GCCGAAAAG
68355554 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.23, G:0.27, T:0.03
Consensus pattern (15 bp):
CGAAAGCCGAAAAGC
Found at i:68356001 original size:27 final size:26
Alignment explanation
Indices: 68355971--68356027 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
68355961 AGGAAGCGTC
*
68355971 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGACTATGCCAC-ATTATCTGTT
* *
68355998 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTATGCCACATTATCTGTT
68356024 CTGG
1 CTGG
68356028 AAGCCATGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGACTATGCCACATTATCTGTT
Found at i:68359712 original size:27 final size:27
Alignment explanation
Indices: 68359663--68359800 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
68359653 TGGAAACGTC
* * *
68359663 CTGGTGGCTATGCCA-AAATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
68359690 CTGATGGCTCTGCCACATATATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGTT
68359717 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
68359744 CTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* **
68359771 CTGGTGACTCTGTTACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
68359797 CTGG
1 CTGG
68359801 AAGCCATGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.12
27 86 0.86
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:68369969 original size:29 final size:28
Alignment explanation
Indices: 68369933--68370010 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
68369923 TCATGAGATT
68369933 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
68369963 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
68369990 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
68370011 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:68370273 original size:173 final size:172
Alignment explanation
Indices: 68369963--68370287 Score: 551
Period size: 173 Copynumber: 1.9 Consensus size: 172
68369953 AAATTGTACA
* *
68369963 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
68370028 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
68370093 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
68370135 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
68370200 TGTGCAACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 TGCG-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
68370265 TTTGGACAGCGGAAAAGGTAAGT
130 TTTGGACAGCGGAAAAGGTAAGT
68370288 ACCTTGAGTT
Statistics
Matches: 142, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
172 62 0.44
173 80 0.56
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (172 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:68389851 original size:28 final size:28
Alignment explanation
Indices: 68389796--68389851 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
68389786 TTATTTCCCA
* *
68389796 AAATAAACATCTCAATACATTTCCAATT
1 AAATAAACATCTCAATACAATTCAAATT
* * *
68389824 AAATAATCTTCTCAATCCAATTCAAATT
1 AAATAAACATCTCAATACAATTCAAATT
68389852 CTGTTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (28 bp):
AAATAAACATCTCAATACAATTCAAATT
Found at i:68390013 original size:7 final size:6
Alignment explanation
Indices: 68389998--68390040 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
68389988 CATTTTTAAG
68389998 TCATTT TCATTTT TCATTTT TCATTT TCATTT TCATTT TCATT
1 TCATTT TCA-TTT TCA-TTT TCATTT TCATTT TCATTT TCATT
68390041 GTAGAGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 23 0.64
7 13 0.36
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (6 bp):
TCATTT
Found at i:68392190 original size:199 final size:199
Alignment explanation
Indices: 68391952--68392353 Score: 734
Period size: 199 Copynumber: 2.0 Consensus size: 199
68391942 TAAATACTTA
* * *
68391952 ATAATTATCAAAAATTCAGAATAAAAAATAATAAAATAATAATAGCTAATAAATACAATATTGGG
1 ATAATTATCAAAAACTCAGAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
68392017 CTCATATATAATAAAAATTAAACCTAAAACACGAACCCAATATGATTTAAACTCGAACTAAAAGC
66 CTCATATATAATAAAAATTAAACCTAAAACACGAACCCAATATGATTTAAACTCGAACTAAAAGC
*
68392082 TCAAAACTCATAATTT-TCGTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAT
131 TCAAAACTCATAATTTCT-GTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAA
68392146 TGGTC
195 TGGTC
68392151 ATAATTATCAAAAACTCAGAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
1 ATAATTATCAAAAACTCAGAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
*
68392216 CTCATATATAATAAAAATTAAACCTAAAACACGAACCCAATATGATTTAAACTTGAACTAAAAGC
66 CTCATATATAATAAAAATTAAACCTAAAACACGAACCCAATATGATTTAAACTCGAACTAAAAGC
*
68392281 TCAAAACTCATAATTTCTGTGATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAAT
131 TCAAAACTCATAATTTCTGTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAAT
68392346 GGTC
196 GGTC
68392350 ATAA
1 ATAA
68392354 CTTGAGTTCT
Statistics
Matches: 196, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
199 195 0.99
200 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (199 bp):
ATAATTATCAAAAACTCAGAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
CTCATATATAATAAAAATTAAACCTAAAACACGAACCCAATATGATTTAAACTCGAACTAAAAGC
TCAAAACTCATAATTTCTGTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAAT
GGTC
Found at i:68397691 original size:343 final size:344
Alignment explanation
Indices: 68397043--68397724 Score: 1222
Period size: 343 Copynumber: 2.0 Consensus size: 344
68397033 AGAAGAGCAG
* * *
68397043 TATTTTCAGCTCACTAGAAGCACTATTAGTTTTAATTTATTGGCTCGAGTGTAGGAATCATAATT
1 TATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGCTCAAGTGCAGGAATCATAATT
68397108 GGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCCAAAAT
66 GGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCCAAAAT
* * *
68397173 ACTCCTGGGATGGTAGGCTCCTCAGAAGAAAAGGGAAGATTATGGTGGGAAATGTTGCTGGTCTC
131 ACTCCTGGGATGGAAGGCTCCTCAGAAAAAAAGGAAAGATTATGGTGGGAAATGTTGCTGGTCTC
68397238 AAGAAGGAATTGTTTCAGCTATTCTGTGATAGCACTCTAAGGGGACATTCAGGGGTAAATGCAAC
196 AAGAAGGAATTGTTTCAGCTATTCTGTGATAGCACTCTAAGGGGACATTCAGGGGTAAATGCAAC
*
68397303 TAAAAAGATACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATAGGTAA
261 TAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATAGGTAA
68397368 GAGAATGTCAGATAGGCAA
326 GAGAATGTCAGATAGGCAA
*
68397387 TATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGCTCAAGTGCAGGAATCATATTT
1 TATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGCTCAAGTGCAGGAATCATAATT
68397452 GGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCCAAAAT
66 GGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCCAAAAT
*
68397517 ACTCCT-GGATGGAAGGTTCCTCAGAAAAAAAGGAAAGATTATGGTGGGAAATGTTGCTGGTCTC
131 ACTCCTGGGATGGAAGGCTCCTCAGAAAAAAAGGAAAGATTATGGTGGGAAATGTTGCTGGTCTC
* * * *
68397581 AAGAAGGAATTGTTTTAGCTCTTCTGTGATAGTACTCTAGGGGGACATTCAGGGGTAAATGCAAC
196 AAGAAGGAATTGTTTCAGCTATTCTGTGATAGCACTCTAAGGGGACATTCAGGGGTAAATGCAAC
* *
68397646 TAAGAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAGAGATAGGTAA
261 TAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATAGGTAA
68397711 GAGAATGTCAGATA
326 GAGAATGTCAGATA
68397725 TCTCAAAAAT
Statistics
Matches: 323, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
343 191 0.59
344 132 0.41
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (344 bp):
TATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGCTCAAGTGCAGGAATCATAATT
GGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCCAAAAT
ACTCCTGGGATGGAAGGCTCCTCAGAAAAAAAGGAAAGATTATGGTGGGAAATGTTGCTGGTCTC
AAGAAGGAATTGTTTCAGCTATTCTGTGATAGCACTCTAAGGGGACATTCAGGGGTAAATGCAAC
TAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATAGGTAA
GAGAATGTCAGATAGGCAA
Found at i:68402195 original size:14 final size:14
Alignment explanation
Indices: 68402176--68402213 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
68402166 ACAATTTAAT
68402176 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
68402190 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
*
68402204 TTTTCTTCTT
1 TTTTTTTCTT
68402214 CCCATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:68415345 original size:20 final size:20
Alignment explanation
Indices: 68415316--68415358 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
68415306 GTTGAAATGG
68415316 TTGTGGAT-AATTGGCATGAT
1 TTGTGGATAAATT-GCATGAT
* *
68415336 TTGTGTATAAATTGCATGTT
1 TTGTGGATAAATTGCATGAT
68415356 TTG
1 TTG
68415359 GCTGCCCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGTGGATAAATTGCATGAT
Found at i:68418695 original size:53 final size:53
Alignment explanation
Indices: 68418618--68418842 Score: 202
Period size: 53 Copynumber: 4.2 Consensus size: 53
68418608 AGGATACACG
*
68418618 TGGTATCCTTGCCTTATGAACTCACCATTGCCATGTCTTGACATGGTCTTACG
1 TGGTATCCTTGCCTTATGAACTCACCATTGCCATGTCTTGACATGGTCTTACA
* *
68418671 TGGTATCCTTGCCTTATGAACTCACCATTGCCATGGCTTGGCATGGTCTTACA
1 TGGTATCCTTGCCTTATGAACTCACCATTGCCATGTCTTGACATGGTCTTACA
* * ** ** * ** * *
68418724 TGGGATCTTTGTGTTATCGTAGTTTATGAATGCCATGTCTTGACATGGTCCTACA
1 TGGTATCCTTGCCTTAT-G-AACTCACCATTGCCATGTCTTGACATGGTCTTACA
* * * * * * *
68418779 TGATTTCTTTGCCTCGTA-AAACTTACCAATT-CCATGTCTTGGCATGGTCTTACT
1 TGGTATCCTTGCCT--TATGAACTCACC-ATTGCCATGTCTTGACATGGTCTTACA
68418833 TGGTATCCTT
1 TGGTATCCTT
68418843 AAACCCTAAT
Statistics
Matches: 134, Mismatches: 33, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
53 63 0.47
54 32 0.24
55 37 0.28
57 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (53 bp):
TGGTATCCTTGCCTTATGAACTCACCATTGCCATGTCTTGACATGGTCTTACA
Found at i:68423577 original size:40 final size:40
Alignment explanation
Indices: 68423529--68423756 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
68423519 GCTACTTGCT
*
68423529 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68423569 CAAGTGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68423609 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68423649 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
68423689 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
68423728 CAAATGCCTTCGGGACTTAACCTGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
68423757 CATCCGAATA
Statistics
Matches: 171, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.20
40 135 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:68429187 original size:104 final size:104
Alignment explanation
Indices: 68429065--68429288 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
68429055 AATGGATATC
68429065 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
68429130 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
68429169 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
68429234 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
68429273 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
68429289 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:68429650 original size:29 final size:29
Alignment explanation
Indices: 68429617--68429680 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
68429607 TAATCCACCA
68429617 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
68429646 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
68429676 CCCAA
1 CCCAA
68429681 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:68429654 original size:30 final size:30
Alignment explanation
Indices: 68429624--68429680 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68429614 CCACCCAACT
68429624 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
68429653 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
68429681 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:68435830 original size:104 final size:104
Alignment explanation
Indices: 68435708--68435931 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
68435698 AATGGATATC
68435708 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
68435773 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
68435812 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
68435877 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
68435916 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
68435932 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:68436300 original size:29 final size:30
Alignment explanation
Indices: 68436267--68436323 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
68436257 CCACCCAACT
*
68436267 TTTTG-AAAATTATAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
68436296 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
68436324 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:68439850 original size:46 final size:46
Alignment explanation
Indices: 68439800--68439975 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
68439790 TGATTGAGCA
68439800 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68439846 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68439891 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68439939 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68439976 GGGTTACATG
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68439956 original size:93 final size:93
Alignment explanation
Indices: 68439797--68439968 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68439787 GGATGATTGA
* *
68439797 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68439862 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
68439890 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68439955 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
68439969 CTTATGGGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68441423 original size:39 final size:39
Alignment explanation
Indices: 68441288--68441472 Score: 237
Period size: 40 Copynumber: 4.7 Consensus size: 39
68441278 TCGGATGATA
* * **
68441288 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACT-AT
* * *
68441328 TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
68441367 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
68441407 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
68441446 AACCGGGCTAAGTCCCAAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
68441473 AGCTAGTGGC
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
39 38 0.30
40 88 0.69
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:68441486 original size:40 final size:40
Alignment explanation
Indices: 68441285--68441495 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
68441275 AGTTCGGATG
* * *
68441285 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTGACT
* *
68441325 A-ATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * *
68441365 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
68441405 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * *
68441444 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
68441484 ATATCC-GGCTAA
1 ATAACCGGGCTAA
68441496 ACTCTGAGGG
Statistics
Matches: 149, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 44 0.30
40 101 0.68
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:68441494 original size:79 final size:78
Alignment explanation
Indices: 68441285--68441495 Score: 264
Period size: 79 Copynumber: 2.7 Consensus size: 78
68441275 AGTTCGGATG
* *
68441285 ATAACCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTA-ATTCTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAG-GCATTTGAGCTAGTGGCTATA-TC-CGGCTAAGTCCCGAAGGC
*
68441349 ATTTGTGCGAGCTACT
63 ATTTGTGCAAGCTACT
* * * ***
68441365 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCC-AAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAGTCCCGAAGGCA
*
68441429 TTTGTGCAAGTTACT
64 TTTGTGCAAGCTACT
68441444 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 ATAACCGGGCTAAGTCCC-AAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
68441496 ACTCTGAGGG
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 74 0.67
80 33 0.30
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCAAGGCATTTGAGCTAGTGGCTATATCCGGCTAAGTCCCGAAGGCATT
TGTGCAAGCTACT
Found at i:68449422 original size:39 final size:39
Alignment explanation
Indices: 68449327--68449509 Score: 190
Period size: 39 Copynumber: 4.6 Consensus size: 39
68449317 CGGATGATAA
* * **
68449327 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTAA-T
* * *
68449367 CTGGGCTAAGTCCCGAAGGCTTTTGTGCGAGCTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
68449406 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * ** *
68449444 ACCAGGCTAAGTCCCGAACGCATTTGTGTAAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
*
68449485 CCGGGCTAAGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
68449510 AGCTAGTGGC
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
38 3 0.03
39 62 0.52
40 51 0.43
41 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:68449523 original size:40 final size:40
Alignment explanation
Indices: 68449323--68449528 Score: 174
Period size: 39 Copynumber: 5.2 Consensus size: 40
68449313 AATTCGGATG
*
68449323 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCT
* * * *
68449363 A-ATTCTGGGCTAAGTCCCGAAGGCTTTTGTGC--G-AGCT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* ***
68449400 ACTAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 A-TAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* * **
68449442 AT-ACCAGGCTAAGTCCCGAACGCATTTGTG-TAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGGCT
* *
68449481 ATAACCGGGCTAAGTCCTGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
*
68449521 ATATCCGG
1 ATAACCGG
68449529 CAAAATCCGA
Statistics
Matches: 133, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
37 4 0.03
38 1 0.01
39 61 0.46
40 60 0.45
41 5 0.04
42 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
Found at i:68452808 original size:93 final size:93
Alignment explanation
Indices: 68452640--68452811 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
68452630 GGATGATTGA
* *
68452640 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAATGTCCGAACTCTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAACGCCCGAACTCTGTTGAG
68452705 TTGAGTCGAGTTCGTGAGATGTAACTAG
66 TTGAGTCGAGTTCGTGAGATGTAACTAG
* *
68452733 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC-GTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAACGCCCGAACTCTGTTGAG
68452797 TTGAGTCCGAGTTCG
66 TTGAGT-CGAGTTCG
68452812 CTTATGGGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 12 0.16
93 62 0.84
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAACGCCCGAACTCTGTTGAG
TTGAGTCGAGTTCGTGAGATGTAACTAG
Found at i:68452816 original size:46 final size:46
Alignment explanation
Indices: 68452644--68452818 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
68452634 GATTGAGCAT
* * *
68452644 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
68452690 CCGAACTCTGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTC-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
68452735 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
68452783 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68452819 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:68454323 original size:40 final size:40
Alignment explanation
Indices: 68454122--68454323 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
68454112 AGTTCGGATG
* * * *
68454122 ATAACCGGGCTAAGT-CCGAGAAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGTGACT
* *
68454162 A-ATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * *
68454202 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
68454242 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * *
68454281 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
68454321 ATA
1 ATA
68454324 TTCCGGCTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
39 37 0.27
40 96 0.69
41 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:68461295 original size:26 final size:26
Alignment explanation
Indices: 68461259--68461311 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
68461249 CACCACTGAA
* *
68461259 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
68461285 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
68461311 T
1 T
68461312 TTCATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:68461461 original size:26 final size:26
Alignment explanation
Indices: 68461431--68461481 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
68461421 ACCAATGAAC
*
68461431 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
68461457 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
68461482 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:68461521 original size:103 final size:103
Alignment explanation
Indices: 68461338--68461559 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
68461328 AATGGATATC
68461338 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
68461403 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
68461441 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
68461506 GATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
68461544 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
68461560 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:68461920 original size:29 final size:29
Alignment explanation
Indices: 68461887--68461950 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
68461877 TAATCCACCA
68461887 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
68461916 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
68461946 CCCAA
1 CCCAA
68461951 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:68461924 original size:30 final size:30
Alignment explanation
Indices: 68461894--68461950 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68461884 CCACCCAACT
68461894 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
68461923 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
68461951 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:68468103 original size:104 final size:104
Alignment explanation
Indices: 68467981--68468204 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
68467971 AATGGATATC
68467981 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
68468046 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
68468085 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
68468150 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
68468189 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
68468205 TTATATACAA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:68468565 original size:29 final size:29
Alignment explanation
Indices: 68468532--68468595 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
68468522 TAATCCACCA
68468532 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
68468561 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
68468591 CCCAA
1 CCCAA
68468596 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:68468569 original size:30 final size:30
Alignment explanation
Indices: 68468539--68468595 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68468529 CCACCCAACT
68468539 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
68468568 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
68468596 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:68480327 original size:12 final size:12
Alignment explanation
Indices: 68480305--68480333 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
68480295 TAGATGTCTT
68480305 TAAAA-TAATAA
1 TAAAATTAATAA
68480316 TAAAATTAATAA
1 TAAAATTAATAA
68480328 TAAAAT
1 TAAAAT
68480334 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:68487094 original size:23 final size:22
Alignment explanation
Indices: 68487065--68487163 Score: 83
Period size: 23 Copynumber: 4.4 Consensus size: 22
68487055 CAACTCGTAT
*
68487065 GAGCTTACTGATTCAGCTCGTAA
1 GAGCTTACT-ATTCAGCTCATAA
* * **
68487088 GACCTTACTATTTCAACTCATTG
1 GAGCTTACTA-TTCAGCTCATAA
* *
68487111 GAGCTTACCGATTCAGCTCAAAA
1 GAGCTTA-CTATTCAGCTCATAA
*
68487134 GAGCTTACTATTCAGCTTA-ATA
1 GAGCTTACTATTCAGCTCATA-A
68487156 GAGCTTAC
1 GAGCTTAC
68487164 CGTTTCTAGC
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.02
22 20 0.33
23 37 0.62
24 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (22 bp):
GAGCTTACTATTCAGCTCATAA
Found at i:68487179 original size:24 final size:23
Alignment explanation
Indices: 68487111--68487186 Score: 93
Period size: 22 Copynumber: 3.3 Consensus size: 23
68487101 CAACTCATTG
* *
68487111 GAGCTTACCGATTCAGCTCAAAA
1 GAGCTTACCGTTTCAGCTCAATA
*
68487134 GAGCTTA-C-TATTCAGCTTAATA
1 GAGCTTACCGT-TTCAGCTCAATA
68487156 GAGCTTACCGTTTCTAGCTCAATA
1 GAGCTTACCGTTTC-AGCTCAATA
68487180 GAGCTTA
1 GAGCTTA
68487187 TTGTTTATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 18 0.40
23 11 0.24
24 16 0.36
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAATA
Found at i:68487192 original size:24 final size:24
Alignment explanation
Indices: 68487111--68487201 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
68487101 CAACTCATTG
* * *
68487111 GAGCTTACCGATTC-AGCTCAAAA
1 GAGCTTACTGTTTCTAGCTCAATA
* *
68487134 GAGCTTACT-ATTC-AGCTTAATA
1 GAGCTTACTGTTTCTAGCTCAATA
*
68487156 GAGCTTACCGTTTCTAGCTCAATA
1 GAGCTTACTGTTTCTAGCTCAATA
* *
68487180 GAGCTTATTGTTTATCAGCTCA
1 GAGCTTACTGTTTCT-AGCTCA
68487202 GGGGGAGCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 19 0.34
23 11 0.20
24 20 0.36
25 6 0.11
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (24 bp):
GAGCTTACTGTTTCTAGCTCAATA
Found at i:68489687 original size:39 final size:40
Alignment explanation
Indices: 68489590--68489687 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
68489580 CGGATGATAA
* *
68489590 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
68489630 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTA-CTATAT
*
68489670 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
68489688 TACTTGGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.31
40 37 0.69
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
Found at i:68494280 original size:39 final size:39
Alignment explanation
Indices: 68494076--68494298 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
68494066 TTGAATGCTG
* * * * * *
68494076 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
68494116 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
68494156 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
68494196 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
68494236 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
68494275 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
68494299 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:68494318 original size:79 final size:80
Alignment explanation
Indices: 68494156--68494333 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
68494146 AGATACAAGT
* * * *
68494156 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
68494221 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
68494236 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
68494300 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
68494315 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
68494334 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:68498997 original size:40 final size:39
Alignment explanation
Indices: 68498913--68499175 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 39
68498903 TTGAATGATG
* * * * *
68498913 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
68498953 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
68498993 TCCGGGCTAAGCCCGAAGGCATTGGTGCGA-TTACT-AA
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
68499030 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
68499070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
68499110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
68499151 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGT-CCGAAGGCATTTG
68499176 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
37 11 0.06
38 21 0.11
39 23 0.12
40 134 0.67
41 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68499138 original size:80 final size:79
Alignment explanation
Indices: 68498913--68499175 Score: 347
Period size: 80 Copynumber: 3.3 Consensus size: 79
68498903 TTGAATGATG
* * * * **
68498913 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATT
* *
68498977 TGTGCGAGATACTAAT
64 TGTGCGAGTTACTAAA
*
68498993 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGA-TTACT-AATCCGGGTTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
68499055 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
*
68499070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
68499135 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
*
68499151 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68499176 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
77 46 0.28
78 21 0.13
79 16 0.10
80 78 0.48
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:68499193 original size:80 final size:77
Alignment explanation
Indices: 68498914--68499208 Score: 335
Period size: 80 Copynumber: 3.7 Consensus size: 77
68498904 TGAATGATGT
* * ** *
68498914 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTA-ATCCGGGTTAAGTTCCGAAGGCATTT
* *
68498978 GTGCGAGATACTAATT
63 GTGCGAGTTACTAA-A
* *
68498994 CCGGGCTAAG-CCCGAAGGCATTGGTGCGATTACTAATCCGGGTTAAGTTCCGAAGGCATTTGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATCCGGGTTAAGTTCCGAAGGCATTTGTG
68499058 CGAGTTACTAAA
66 CGAGTTACTAAA
* *
68499070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT-AATCCGGGTTAAGTTCCGAAGGCATTT
68499135 GTGCGAGTTACTATAA
63 GTGCGAGTTACTA-AA
* ** * *
68499151 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTA-ATCCGGGTTAAGTTCCGAAGG
68499209 TACGTGATTT
Statistics
Matches: 187, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
77 45 0.24
78 21 0.11
79 31 0.17
80 88 0.47
81 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATCCGGGTTAAGTTCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:68503947 original size:39 final size:40
Alignment explanation
Indices: 68503850--68503947 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
68503840 CGGATGATAA
* *
68503850 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
68503890 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTA-CTATAT
*
68503930 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
68503948 TACTTGGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.31
40 37 0.69
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
Found at i:68508695 original size:9 final size:9
Alignment explanation
Indices: 68508664--68508714 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
68508654 ACAATCAAAA
68508664 TGAGAGAGT
1 TGAGAGAGT
*
68508673 TGAGAAAGT
1 TGAGAGAGT
* *
68508682 CGAGAGACT
1 TGAGAGAGT
*
68508691 TGAGAGGGTT
1 TGAGAGAG-T
68508701 TGAGAGAGT
1 TGAGAGAGT
68508710 TGAGA
1 TGAGA
68508715 AAAGGATGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:68517196 original size:5 final size:5
Alignment explanation
Indices: 68517188--68517214 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
68517178 CCAAAATAAA
68517188 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
68517215 GGTTGGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:68525719 original size:19 final size:20
Alignment explanation
Indices: 68525695--68525734 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
68525685 TTGTCCCAAT
*
68525695 TTTAACATTCA-AATTTACA
1 TTTAACATTCACAATATACA
68525714 TTTAACATTCACAATATACA
1 TTTAACATTCACAATATACA
68525734 T
1 T
68525735 ATTTCAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAACATTCACAATATACA
Found at i:68528674 original size:26 final size:26
Alignment explanation
Indices: 68528645--68528696 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
68528635 CCTCTGATTG
68528645 ATAAAATGACTGTTATGCCCCTATGT
1 ATAAAATGACTGTTATGCCCCTATGT
** * *
68528671 ATAAAATGGTTGTTTTGCCCTTATGT
1 ATAAAATGACTGTTATGCCCCTATGT
68528697 GATGTATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (26 bp):
ATAAAATGACTGTTATGCCCCTATGT
Found at i:68531381 original size:15 final size:15
Alignment explanation
Indices: 68531361--68531392 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
68531351 ACCCTCTATT
68531361 CCTTCTCCATCATCG
1 CCTTCTCCATCATCG
68531376 CCTTCTCCATCATCG
1 CCTTCTCCATCATCG
68531391 CC
1 CC
68531393 GCTCCTCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.50, G:0.06, T:0.31
Consensus pattern (15 bp):
CCTTCTCCATCATCG
Found at i:68533250 original size:39 final size:39
Alignment explanation
Indices: 68533196--68533274 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
68533186 AGAGTTTGTG
68533196 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
1 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
68533235 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
1 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
68533274 T
1 T
68533275 GTTTAATGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (39 bp):
TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
Done.